4TZ1

Ensemble refinement of the E502A variant of sacteLam55A from Streptomyces sp. SirexAA-E in complex with laminaritriose

• PDB DOI: https://doi.org/10.2210/pdb4TZ1/pdb

• Classification: HYDROLASE
• Organism(s): Streptomyces sp. SirexAA-E
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2014-07-09 Released: 2015-03-18 
• Deposition Author(s): Bianchetti, C.M., Takasuka, T.E., Yik, E.J., Bergeman, L.F., Fox, B.G.
• Funding Organization(s): Department of Energy (DOE, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.124 
• R-Value Work: 0.100 
• R-Value Observed: 0.101 

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 4PEY

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 59.89 kDa 
• Atom Count: 4,574 
• Modelled Residue Count: 549 
• Deposited Residue Count: 549 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative secreted protein	A	549	Streptomyces sp. SirexAA-E	Mutation(s): 1  Gene Names: SACTE_4363
UniProt
Find proteins for G2NFJ9 (Streptomyces sp. (strain SirexAA-E / ActE)) Explore G2NFJ9  Go to UniProtKB:  G2NFJ9

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-glucopyranose-(1-3)-beta-D-glucopyranose-(1-3)-beta-D-glucopyranose	B, C	3		N/A
Glycosylation Resources
GlyTouCan:  G00024MO GlyCosmos:  G00024MO GlyGen:  G00024MO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.124 
• R-Value Work: 0.100 
• R-Value Observed: 0.101 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.775	α = 90
b = 100.195	β = 103.49
c = 53.862	γ = 90

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
PHASER	phasing
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-03-18 
Deposition Author(s): Bianchetti, C.M., Takasuka, T.E., Yik, E.J., Bergeman, L.F., Fox, B.G.

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Funding Organization	Location	Grant Number
Department of Energy (DOE, United States)	United States	DE-FC02-07ER64494

Revision History  

• Version 1.0: 2015-03-18
  Type: Initial release
  
• Version 1.1: 2015-03-25
  Changes: Atomic model, Database references, Derived calculations, Non-polymer description
• Version 1.2: 2015-05-20
  Changes: Database references
• Version 1.3: 2017-09-27
  Changes: Advisory, Author supporting evidence, Database references, Derived calculations, Refinement description, Source and taxonomy, Structure summary
• Version 1.4: 2019-12-04
  Changes: Author supporting evidence, Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary